DNA
Switch

Part:BBa_K1185005:Design

Designed by: Vincent Leonardo   Group: iGEM13_Newcastle   (2013-10-26)
Revision as of 12:01, 26 October 2013 by VLeonardo (Talk | contribs) (→‎References)

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E. coli L-form Switch


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal XhoI site found at 1809
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 216
    Illegal AgeI site found at 2139
    Illegal AgeI site found at 2368
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 1425


Design Notes

The BioBrick does not contain any illegal restriction sites. All of the sequences have been taken directly from E. coli genome so there is no need for codon optimization.


Source

All the sequences come from the Escherichia coli K12 genomic sequence. The ftsI section in the BioBrick was taken from end of the ftsI gene 1268-1767bp (500bp). Sequence acquired through EcoCyc (EG10341). The murE section was taken from the start of the murE gene 1-500bp. Sequence from EcoCyc (EG10621). The Pspac promoter were taken from the registry designed by the 2007 Cambridge iGEM team (BBa_1746666). Ampicilin resistance marker gene was taken from the expression vector pSTAR (gb|AF047654.1|AF047654).

References

Botta81: Botta GA, Park JT (1981). "Evidence for involvement of penicillin-binding protein 3 in murein synthesis during septation but not during cell elongation." J Bacteriol 145(1);333-40. PMID: 6450748

Bowler89: Bowler LD, Spratt BG (1989). "Membrane topology of penicillin-binding protein 3 of Escherichia coli." Mol Microbiol 3(9);1277-86. PMID: 2677607

Chen01a: Chen JC, Beckwith J (2001). "FtsQ, FtsL and FtsI require FtsK, but not FtsN, for co-localization with FtsZ during Escherichia coli cell division." Mol Microbiol 42(2);395-413. PMID: 11703663

Corbin04: Corbin BD, Geissler B, Sadasivam M, Margolin W (2004). "Z-ring-independent interaction between a subdomain of FtsA and late septation proteins as revealed by a polar recruitment assay." J Bacteriol 186(22);7736-44. PMID: 15516588

Curtis85: Curtis NA, Eisenstadt RL, Turner KA, White AJ (1985). "Inhibition of penicillin-binding protein 3 of Escherichia coli K-12. Effects upon growth, viability and outer membrane barrier function." J Antimicrob Chemother 16(3);287-96. PMID: 3902760

AboGhalia85: Abo-Ghalia M, Michaud C, Blanot D, van Heijenoort J (1985). "Specificity of the uridine-diphosphate-N-acetylmuramyl-L-alanyl-D-glutamate: meso-2,6-diaminopimelate synthetase from Escherichia coli." Eur J Biochem 1985;153(1);81-7. PMID: 3905407

Auger96: Auger G, van Heijenoort J, Vederas JC, Blanot D (1996). "Effect of analogues of diaminopimelic acid on the meso-diaminopimelate-adding enzyme from Escherichia coli." FEBS Lett 391(1-2);171-4. PMID: 8706910

Bratkovic08: Bratkovic T, Lunder M, Urleb U, Strukelj B (2008). "Peptide inhibitors of MurD and MurE, essential enzymes of bacterial cell wall biosynthesis." J Basic Microbiol 48(3);202-6. PMID: 18506905

Dementin01: Dementin S, Bouhss A, Auger G, Parquet C, Mengin-Lecreulx D, Dideberg O, van Heijenoort J, Blanot D (2001). "Evidence of a functional requirement for a carbamoylated lysine residue in MurD, MurE and MurF synthetases as established by chemical rescue experiments." Eur J Biochem 268(22);5800-7. PMID: 11722566

El03: El Zoeiby A, Sanschagrin F, Levesque RC (2003). "Structure and function of the Mur enzymes: development of novel inhibitors." Mol Microbiol 47(1);1-12. PMID: 12492849